T-Trees

A novel tree-based approach for Genome-Wide Association Studies

Supplementary data

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T1D Type 1 diabetes


3Best: rs3805006 (9)Gene4.78-4.78MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs1962325ITPR147755500.30340.750.2180.5290.00713
rs3805006ITPR147757690.37837.498e-1750.042687.163e-960.0352
rs3792498ITPR147769670.235210.79720.92230.001180
rs7627280ITPR147771650.30840.83240.1940.96440.0099
rs10510297ITPR147790000.38210.31840.15730.29820.00064129
rs3792499ITPR147790810.30910.42260.24650.29420.001274
rs11712551ITPR147791990.38260.36710.14680.28880.00035196
rs3805011ITPR147820210.35060.16280.54340.6340.00042180
rs11712379ITPR147823100.36920.2470.24830.38080.001278
3Best: rs6440373 (5)Gene146.99-146.99MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs98786031469884530.41130.20860.70260.69040.003724
rs98457711469888870.47290.17450.31780.82030.001752
rs98660011469892780.47280.20430.31780.78830.001753
rs67703791469895470.47280.20470.3550.85260.00036193
rs64403731469914740.4641.149e-610.016739.126e-110.004617
6Best: rs3132486 (2)Gene31.35-31.35MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs3132486313511490.39860.28910.29584.151e-470.00084111
rs2524067313538000.21810.53940.56531.015e-350.00073121
6Best: rs9273363 (156)Gene31.45-33.06MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs2853986314468230.16990.034240.44742.973e-410.0008116
rs2844559314480540.18680.54550.21954.489e-410.00053146
rs2442749314600190.34760.54220.96432.261e-370.00088107
rs9266774314608590.12980.12320.5993.21e-310.00091103
rs9266775314613960.12960.1230.59874.372e-310.00068123
rs2596517314680740.14430.89530.1842.003e-310.00046163
rs2244579315446180.19690.54660.071492.342e-170.00041184
rs2248459315546890.40140.0058650.67849.297e-610.001562
rs2248462315547750.18840.021370.20072.579e-270.00037190
rs2248617315565120.40260.0166513.346e-600.001273
rs3099844315569550.18610.064110.76091.424e-430.00046164
rs3131631315926620.2050.72170.72496.363e-300.00049156
rs9348876316832550.055450.429712.734e-190.00058141
rs2736177316940730.10310.79880.22148.227e-550.00188
rs1046089PRRC2A317109460.43930.927312.426e-740.00248
rs760293BAG6317197560.134310.52058.852e-480.00045170
rs805301BAG6317261000.45390.85410.45615.17e-730.003128
rs805297APOM317305850.2890.052180.43970.11660.001271
rs9378164317515010.047170.64560.072794.6e-160.00048157
rs805294LY6G6C317961960.41990.0013840.017781.684e-610.00189
rs707915MSH5MSH5-SAPCD1318189470.076510.903913.031e-170.0004187
rs3130484MSH5MSH5-SAPCD1318238610.17450.0682411.294e-520.00092100
rs3131379MSH5MSH5-SAPCD1318290120.17420.032510.86726.298e-510.00053147
rs3115672MSH5MSH5-SAPCD1318358760.16010.044870.37253.626e-420.00045167
rs2075800HSPA1L318859250.32330.0049190.11090.0011850.00064127
rs2763979HSPA1B319025710.41840.10319.093e-630.002734
rs486416EHMT2319640490.34780.017280.12620.039750.00057142
rs9267673319916580.10220.39430.91072.138e-060.00043176
rs644045319919360.36655.873e-060.0039320.12330.00035199
rs9501161MIR1236RDBP320323060.072390.40420.54252.529e-060.00059139
rs406936SKIV2L320411400.1030.13560.36411.78e-250.00052152
rs492899SKIV2L320414970.10270.0235116.997e-220.001183
rs3130287TNXB321585220.099510.7260.15233.78e-790.003526
rs1150753TNXB321678450.17450.029510.61285.514e-550.001754
rs1269851ATF6B322001850.038670.560311.702e-150.0004188
rs408359AGPAT1322498610.078360.8080.10975.384e-140.00045169
rs2071278NOTCH4322734220.20720.017990.63061.651e-440.00081115
rs3131294NOTCH4322881240.091960.084090.16212.442e-970.004518
rs379464NOTCH4322943260.0586210.50272.764e-140.00089106
SNP_A-2064274323004140.068772.9e-070.0042941.877e-140.00053145
rs377763323071220.28087.51e-050.37491.09e-780.003922
rs3134926323081250.26690.94940.75391.022e-100.00043173
rs424232323163020.32290.011990.37992.149e-330.00044171
rs9267954323210300.29820.017280.085534.577e-110.00074119
rs6936204323250700.34050.0011240.033642.604e-060.00246
rs1559873323511070.25260.0011630.22031.306e-160.00062134
rs9268208C6orf10323885690.18060.027690.17822.396e-480.00091102
rs9268230C6orf10323955450.25240.078480.051992.848e-970.001755
rs3132959C6orf10324069200.16470.40060.052273.991e-1380.005714
rs3129900C6orf10324139570.108110.07781.769e-1180.003327
rs9368716C6orf10324140680.47990.0056290.3331.789e-050.00047161
rs910049C6orf10324237050.16810.042720.00021712.399e-1370.003823
rs2894249C6orf10324338130.16150.52330.40253.298e-1290.002244
rs3129932C6orf10324441050.16460.40110.058521.021e-1370.005615
rs3129933C6orf10324441390.21880.00039760.14737.251e-190.00067124
rs3129934C6orf10324441650.108410.049981.837e-1190.00420
rs9268402C6orf10324493310.48880.00011560.91190.0012040.00066125
rs9391858C6orf10324493760.12930.89580.35236.335e-170.0009994
rs9268403C6orf10324494510.35421.695e-170.48661.039e-340.001756
rs12201454324516640.35385.455e-170.45947.914e-350.00187
rs9268429324530300.35837.664e-170.0019649.296e-310.00055144
rs12528797324530640.10330.8910.51690.00037250.00036191
rs2894254324536670.17550.00012820.9322.081e-600.003525
rs3129953HCG23324697990.21470.0001420.43261.68e-380.00053151
rs2076533BTNL2324715050.4779.852e-050.76515.575e-140.00083113
rs2076530BTNL2324717940.48196.694e-050.94065.681e-130.00042178
rs9268480BTNL2324718220.35422.458e-170.45981.775e-340.002930
rs3806156BTNL2324816760.40827.604e-110.87447.792e-190.00089105
rs3763307BTNL2324826000.35392.335e-170.43392.938e-340.002735
rs3763308BTNL2324826180.0262210.60411.256e-190.0006136
rs6930933324913880.22078.733e-060.70514.643e-350.001469
rs2001097324918360.22085.163e-060.70576.749e-350.00053149
rs9268541324925050.0668910.10574.103e-090.00083112
rs3135378324930770.22095.178e-060.65959.46e-350.00039189
rs3135377324933770.1480.550913.956e-1550.008611
rs3135376324934480.2215.163e-060.57129.858e-350.00062132
rs2395167324962860.22171.511e-050.4132.769e-350.0006137
rs9268557324972830.46051.22e-080.85341.064e-440.00249
rs9268560324974900.43331.765e-070.97052.71e-340.00193
rs3135363324976260.2910.0034410.22031.523e-100.001185
rs3129847325044840.32532.165e-080.17484.231e-190.00048158
rs3135342325045930.32749.966e-080.34841.026e-190.001276
rs7756262325066530.43092.327e-170.62841.709e-550.002929
rs5000563325121130.32715.77e-080.37212.287e-190.00065126
rs3129872HLA-DRA325151310.3275.803e-080.37231.889e-190.0005154
rs9268645HLA-DRA325165050.43866.341e-190.7523.778e-570.004716
rs3129877HLA-DRA325165750.32861.638e-080.47533.267e-200.001560
rs3135393HLA-DRA325168200.2270.00034670.11262.643e-320.001279
rs3135392HLA-DRA325172200.39951.383e-110.36930.0068950.001275
rs3177928HLA-DRA325204130.12760.43140.61016.454e-150.00058140
rs7194HLA-DRA325204580.37213.651e-080.70043.205e-110.001561
rs1051336HLA-DRA325205700.22666.738e-050.90321.046e-300.001559
rs9268831325357260.46883.987e-080.20911.025e-250.001757
rs9268853325376210.40791.389e-320.87351.05e-250.002831
rs9268858325377360.40841.145e-310.93666.955e-260.001370
rs9268861325378720.24262.593e-080.50225.434e-220.0009104
rs9268862325381450.28183.312e-080.88265.053e-160.00036195
rs7746922325389530.2891.456e-075.227e-058.38e-110.00049155
rs9268877325391250.30890.024970.24012.072e-800.002145
rs7749092325570280.20040.33610.41373.728e-860.002538
rs9270986326820380.0937410.11364.955e-1640.017
rs615672LOC100507709LOC100507714326821490.3711.532e-110.96682.313e-220.00190
rs9271208326869810.30652.33e-070.50421.331e-310.001466
rs4530903326898670.10270.23910.84670.065910.001563
rs9271850327030380.35654.699e-070.00017957.121e-170.001186
rs3129768327030610.11960.16860.2042.643e-1180.002539
rs9272219327102470.30737.387e-130.69795.678e-420.00062133
rs9272346HLA-DQA1327123500.2920.012890.81555.425e-1490.001277
rs9272723HLA-DQA1327174050.258510.00046439.717e-1530.001467
rs9273363327342500.4670.0058320.600700.0371
rs9275134327585900.3143.483e-190.51159.101e-810.002536
rs2856688327626180.31354.757e-190.47921.071e-800.001464
rs9469220327662880.39176.74e-060.73945.597e-1120.018
rs6457617327718290.47914.241e-160.6317.947e-150.00087108
rs6457620327719770.47892.999e-160.60541.148e-140.0004186
rs2647046327763140.39522.945e-090.21890.04960.00091101
rs9275418327782220.34291.07e-160.40411.301e-1200.008810
SNP_A-4226034327784730.12940.13410.93670.047360.00076118
rs9275523327829720.32161.056e-210.5652.186e-1220.008312
rs9275572327869770.41752.948e-120.87990.094410.00247
rs3957146327895080.21153.665e-120.21521.027e-1980.0193
rs3104404327901520.0966910.10333.982e-550.001851
rs6936863327920070.32831.204e-080.15552.485e-830.001468
rs3916765327935280.20171.632e-190.14263.631e-1260.004319
rs9275765327973020.2921.43e-170.7682.396e-280.001181
rs9275772327974810.2929.263e-180.73126.625e-280.0006138
rs9275793327980050.29232.105e-170.69466.806e-280.00043177
rs2395237327989230.31360.31210.49216.588e-410.00045165
rs2859090328088110.24514.724e-060.67427.77e-070.00064128
rs2227127HLA-DQA2328197600.31840.6190.3633.138e-440.0009895
rs9276429HLA-DQA2328200820.47960.39350.82386.034e-470.00086109
rs9276431HLA-DQA2328202250.47960.39320.85272.931e-470.00062131
rs9276432HLA-DQA2328203620.47920.36770.85287.9e-470.00041181
rs2239800HLA-DQA2328212450.051170.63650.00011222.033e-220.00048160
rs9276435HLA-DQA2328218450.21916.873e-060.22021.014e-100.00053150
rs9276440HLA-DQA2328227610.47650.2960.94096.051e-460.00057143
rs9276448328236070.0798310.18070.018050.00043175
rs9276490MIR3135B328266590.4750.44510.88187.82e-470.0009399
rs2051549HLA-DQB2328380640.48430.39330.882.445e-490.001465
rs9296043328440810.33410.90560.90641.311e-390.00051153
rs9296044328441220.3380.55860.43775.242e-400.00046162
rs1015575328460930.32033.595e-050.47591.877e-450.002342
rs2857212328483890.31370.10880.87433.287e-510.002732
rs2621416328498460.25510.35470.96030.018730.00053148
rs12661352328535050.042020.62390.00019744.129e-150.00044172
rs17501267HLA-DOB328901270.0348110.8343.225e-160.0009497
rs2071474HLA-DOB328905600.22740.623412.368e-340.001272
rs9784858328951530.1040.12430.90322.208e-170.00081114
rs17429458328953150.034610.83316.652e-160.00034200
rs10484565TAP2329030100.095060.18080.89337.532e-170.0009398
rs4148873TAP2329083900.12350.099690.051469.197e-250.001950
rs241427TAP2329123920.27750.65430.50962.935e-630.002440
rs4148882TAP1329249360.28230.43340.50211.685e-500.001184
rs9276832329403780.33850.00078040.21230.30450.00041185
rs3101942LOC100294145329780350.32810.6980.082632.818e-720.002733
rs188245330639540.49260.70610.70761.442e-420.0009596
10Best: rs7078771 (3)Gene84.67-84.68MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs17101070NRG3846696030.36040.27510.75060.089590.00036192
rs7078771NRG3846790400.075643.307e-2575.455e-055.421e-150.0184
rs17107795NRG3846804340.060420.50770.44320.030570.00421
11Best: rs1176741 (5)Gene113.31-113.31MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs17116117HTR3B1133068010.043710.00060490.1161.374e-130.002243
rs17116145HTR3B1133095360.0276410.52020.077910.00048159
rs1176741HTR3B1133125250.02940.38030.11920.11240.002537
rs1176740HTR3B1133126060.02910.63220.12060.049710.0007122
rs1176738HTR3B1133133050.028940.63060.11930.048740.00192
13Best: rs7332105 (7)Gene82.20-82.31MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs11619882822028150.36010.12790.21050.71350.00035198
rs4254200822136530.46833.583e-1320.59546.2e-290.0166
rs9601965822155150.22320.47590.59290.78530.002441
rs17260020822174620.2220.69150.78760.940.00191
rs7332105822421070.42380.9630.82120.30670.0175
rs9546233822967020.41620.96270.62230.20880.001658
rs9546237823128470.41690.96280.67740.21730.00043174
16Best: rs9924471 (2)Gene28.48-28.50MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs151320CCDC101284761790.13390.41120.21070.011980.00045166
rs9924471CCDC101284990310.16881.739e-160.46871.398e-080.0006135
17Best: rs12103453 (2)Gene69.45-69.46MbMAFHWE(case)HWE(cont)p-valueimp.rank
rs12936105694458120.077080.74750.8980.69910.00045168
rs12103453694566060.39282.664e-240.60648.714e-090.00073120